plotMtotalAlphaGamma: Plot the predicted gene expression, transcription (alpha) and...

In haiyueliu/Eskrate: Estimate time-dependent RNA kinetics

Plot the predicted gene expression, transcription (alpha) and degradation (gamma) rate profiles over the cell cycle time.

Description

Plot the predicted gene expression, transcription (alpha) and degradation (gamma) rate profiles over the cell cycle time.

Usage

plotMtotalAlphaGamma(
  df.prediction = prediction,
  gene.to.plot = "PCNA",
  color.alpha = "#D95F02",
  color.gamma = "#1B9E77",
  color.expression = "#666666",
  show.phase.boundaries = TRUE,
  line.size = 1,
  font.size = 16
)

Arguments

df.prediction	a data frame of the predicted gene expression, transcription (alpha) and degradation (gamma) with gene in sorted cells.
gene.to.plot	character the name of the gene to plot (default: "PCNA")
color.alpha	character the color used for transcription rate (default: "#D95F02")
color.gamma	character the color used for degradation rate (default: "#1B9E77")
color.expression	character the color used for predicted expression (default: "#666666")
show.phase.boundaries	logical weather to plot the cell cycle phase boundaries in the x axis (default: TRUE)
line.size	numeric the line size for the profile plot (default: 1)
font.size	numeric the font size for the plot (default: 16)

Examples

plotMtotalAlphaGamma(df.prediction=df_predicted, gene.to.plot="PCNA")

haiyueliu/Eskrate documentation built on Sept. 3, 2023, 3:33 p.m.